vdsstream VDS - Biofilm-associated protein (BAP) Acinetobacter baumannii

Target: Nucleoside Diphosphate Kinase
NCBI RefSeq#: NZ_CP009257.1
*Protein ID (NP or XP #) or Wolbachia#:
Organism (including strain): Acinetobacter baumannii (strain SDF)
Etiologic Risk Group (see link below): Group 2
http://www.bacterio.net/-hazard.html#group2

*Disease Information (sort of like the Intro to your Mini Research Write up): Most serious Pseudomonas infections occur in hospitals, in patients with already-weakened immune systems or surgical/burn wounds. If severe, as in the cases of blood infection, pneumonia, and post-surgery infections, this can cause illness and death in patients. They can be spread on the hands of healthcare workers or equipment, especially breathing machines or catheters.
https://www.cdc.gov/hai/organisms/pseudomonas.html

Link to TDR Targets page (if present): n/a
Link to Gene Database page (NCBI, EuPath databases -e.g. TryTryp, PlasmoDB, etc - or PATRIC, etc.)
https://www.ncbi.nlm.nih.gov/gene/?term=881248
https://www.uniprot.org/uniprot/Q03023
https://www.patricbrc.org/view/Genome/208964.12#view_tab=features&filter=keyword(aprA)

Essentiality of this protein: Alkaline metalloproteinase cleaves the complement C1q and C3, which are involved in complement-mediated phagocytosis, and prevents killing by human neutrophils.
http://www.jimmunol.org/content/188/1/386.long
Is it a monomer or multimer as biological unit? (make prediction at http://www.ebi.ac.uk/msd-srv/prot_int/pistart.html): multimer
Complex of proteins?: n/a
Druggable Target (list number or cite evidence from a paper/database showing druggable in another organism):
https://pubs.acs.org/doi/full/10.1021/acs.jmedchem.5b01698?src=recsys

*EC#: 3.4.24.40
Link to BRENDA EC# page:
http://www.brenda-enzymes.org/enzyme.php?ecno=3.4.24.40
-- Show screenshot of BRENDA enzyme mechanism schematic

BrendaReactionsScreenshot.PNG

Enzyme Assay information (spectrophotometric, coupled assay ?, reagents):
-- link to Sigma (or other company) page for assay (see Sigma links below)
-- -or link (or citation) to paper that contains assay information
https://www.sciencedirect.com/science/article/pii/S0022283611012812?via%3Dihub#bbb0080

-- links to assay reagents (substrates) pages.

--- List cost and quantity of substrate reagents, supplier, and catalog

Ac-Pro-Leu-Gly-[2-mercapto-4-methyl-pentanoyl]-Leu-Gly ethyl ester: Bachem, $870.00/25mg, Catalog # 4012251
DTDP: Sigma Aldrich, $38.80/g, Catalog # 143057

Structure (PDB or Homology model): 1KAP
Current Inhibitors:
http://www.brenda-enzymes.org/enzyme.php?ecno=3.4.24.40#INHIBITORS

Expression Information (has it been expressed in bacterial cells): Yes
http://www.jimmunol.org/content/188/1/386.long
Purification Method: His trap column
http://www.jimmunol.org/content/188/1/386.long

Image of protein (PyMol with features delineated and shown separately):

TargetDiscoProteinImage.PNG

*Amino Acid Sequence (paste as text only - not as screenshot or as 'code'):

<span style="font-family: monospace,monospace;">mssnslalkg rsdaytqvdn flhayarggd elvnghpsyt vdqaaeqilr eqaswqkapg
dsvltlsysf ltkpndffnt pwkyvsdiys lgkfsafsaq qqaqaklslq swsdvtnihf
vdagqgdqgd ltfgnfsssv ggaafaflpd vpdalkgqsw ylinssysan vnpangnygr
qtltheight lglshpgdyn agegdptyad atyaedtray svmsyweeqn tgqdfkgays
sapllddiaa iqklyganlt trtgdtvygf nsnterdfys atssssklvf svwdaggndt
ldfsgfsqnq kinlnekals dvgglkgnvs iaagvtvena iggsgsdlli gndvanvlkg
gagndilygg lgadqlwgga gadtfvygdi aessaaapdt lrdfvsgqdk idlsgldafv
ngglvlqyvd afagkagqai lsydaaskag slaidfsgda hadfainlig qatqadivv**<span style="background-color: #ffffff;">*length of your protein in Amino Acids: </span>**<span style="background-color: #ffffff;">479aa</span>
**Molecular Weight of your protein in kiloDaltons using the [[http://expasy.org/tools/protparam.html|Expasy ProtParam]] website:** <span style="background-color: #ffffff;">50432.96 kDa</span>
**Molar Extinction coefficient of your protein at 280 nm wavelength:** <span style="background-color: #ffffff;">71280</span>
**<span style="background-color: #ffffff;">TMpred graph Image</span>**<span style="background-color: #ffffff;"> ([[@http://www.ch.embnet.org/software/TMPRED_form.html]]). Input your amino acid sequence to it.
[[image:vdsstream/TMpredgraph.PNG caption="TMpredgraph.PNG"]]</span>
***CDS Gene Sequence (paste as text only):** </span>

<span style="font-size: medium;">ATGTCCAGCAATTCTCTTGCATTGAAAGGTCGTAGCGATGCGTATACCCAGGTAGACAAC
TTCCTGCATGCCTATGCGCGGGGCGGGGACGAATTGGTCAATGGCCATCCGTCCTATACC
GTCGACCAGGCGGCGGAGCAGATCCTCCGCGAACAGGCGTCTTGGCAGAAAGCGCCGGGC
GACTCGGTGCTGACCCTGTCCTATTCGTTCCTGACCAAACCGAACGACTTCTTCAATACG
CCGTGGAAGTATGTCAGCGATATCTACTCGCTGGGCAAGTTCAGCGCCTTTTCCGCGCAG
CAGCAGGCCCAGGCCAAGTTGTCGCTGCAATCCTGGTCGGACGTCACCAATATCCACTTC
GTCGACGCCGGCCAGGGCGATCAGGGCGACCTGACCTTCGGCAACTTCAGCAGTAGTGTC
GGCGGTGCGGCGTTCGCCTTCCTGCCGGATGTACCGGATGCGCTCAAGGGGCAATCCTGG
TACCTGATCAACAGCAGCTACAGCGCCAACGTCAATCCGGCCAACGGCAACTACGGACGC
CAGACCCTGACCCACGAGATCGGCCATACCCTGGGCCTGAGCCACCCCGGCGACTACAAC
GCCGGCGAGGGCGATCCCACCTACGCCGACGCTACCTACGCCGAGGACACCCGCGCCTAT
TCGGTGATGAGCTACTGGGAAGAGCAGAACACCGGCCAGGACTTCAAGGGCGCCTATTCC
TCGGCACCGCTGCTGGACGACATCGCGGCGATCCAGAAGCTCTACGGGGCCAACCTGACC
ACTCGCACCGGCGACACGGTGTACGGCTTCAACTCCAACACCGAGCGCGACTTCTACAGC
GCCACCTCGTCCAGTTCCAAGCTGGTGTTCTCGGTGTGGGACGCCGGCGGCAACGACACC
CTGGACTTCTCCGGCTTCAGCCAGAACCAGAAGATCAACCTCAACGAGAAGGCGCTGTCC
GATGTCGGCGGGTTGAAGGGCAATGTGTCGATCGCTGCCGGGGTCACCGTGGAAAACGCC
ATCGGCGGCTCGGGTAGCGACCTGTTGATCGGCAACGACGTGGCCAACGTGCTCAAGGGC
GGCGCCGGCAACGACATCCTCTACGGCGGCCTCGGCGCGGACCAGCTGTGGGGTGGCGCG
GGAGCCGACACCTTCGTCTACGGCGATATCGCCGAGTCCTCCGCGGCGGCGCCGGATACC
CTGCGCGACTTCGTCAGCGGCCAGGACAAGATCGACCTGTCCGGGCTGGACGCCTTCGTC
AACGGCGGGCTGGTGCTGCAATACGTCGACGCCTTCGCCGGCAAGGCCGGCCAGGCGATC
CTGTCCTACGACGCGGCGAGCAAGGCCGGCAGCCTGGCGATCGACTTCAGCGGGGACGCC
CATGCCGATTTCGCGATCAATCTGATCGGCCAGGCGACCCAGGCCGACATCGTCGTCTGA</span>**<span style="background-color: #ffffff;">*GC% Content for gene: </span>**<span style="background-color: #ffffff;">63.61%</span>